Introduction
< Explain >
Goals
< what are you trying to achieve >
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Learn how to communicate with cbioportal and study what is
available.
- This portal is hierarchically structured. This is the workflow.
- Initiate cBioPortal API
- List studies
- List available datasets for the chosen study
- Find all sample IDs associated with the dataset
- Acquire clinical data
- List available molecular data associated with the dataset
- Download
Find you TCGA ID
- Important here: you need to replace this with your own assigned TCGA
ID. For this report I’m using TCGA-BH-A0GY
Clinical data.
Now that we have a basic understanding of what is available lets go
and download the actual data.
mutation table
Identifying pathogenic mutations.
Now that the data has been succesfully donwloaded and annotated lets
study it a bit more.